rrwick / BacsortLinks
a collection of scripts for organising bacterial genomes by species
☆76Updated 3 years ago
Alternatives and similar repositories for Bacsort
Users that are interested in Bacsort are comparing it to the libraries listed below
Sorting:
- A tool for removing redundant genomes from a set of assemblies☆71Updated last year
- ☆82Updated last year
- Fast k-mer based tool for multi locus sequence typing (MLST)☆44Updated 4 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆78Updated 10 months ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 3 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆60Updated 4 months ago
- Reorients assembled microbial sequences☆121Updated 3 months ago
- Estimate metagenomic coverage and sequence diversity☆54Updated 10 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- reference-based long read assemblies of bacterial genomes☆49Updated 3 years ago
- IS mapping software☆54Updated 3 years ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆41Updated 3 years ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆49Updated last year
- Adapter trimmer for Oxford Nanopore reads using ab initio method☆42Updated 7 months ago
- Sorts amplicons from Nanopore sequencing data based on similarity☆38Updated 3 weeks ago
- Identify phage regions in bacterial genomes for masking purposes☆32Updated 5 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated 2 years ago
- Assembly methods for nanopore-based metagenomic sequencing: a comparative study☆18Updated 5 years ago
- DDBJ Fast Annotation and Submission Tool☆79Updated last month
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆71Updated last year
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆69Updated this week
- GTDB taxonomy taxdump files with trackable TaxIds☆54Updated last month
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆74Updated last year
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆30Updated 5 years ago
- Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and …☆32Updated last year
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆46Updated 2 months ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆44Updated 2 years ago
- tools for assessing the accuracy of genome assemblies☆34Updated last year